@inbook{54bc21258fef4f13818a4b530a22157a,
title = "Pseudotime reconstruction using TSCAN",
abstract = "In many single-cell RNA-seq (scRNA-seq) experiments, cells represent progressively changing states along a continuous biological process. A useful approach to analyzing data from such experiments is to computationally order cells based on their gradual transition of gene expression. The ordered cells can be viewed as samples drawn from a pseudo-temporal trajectory. Analyzing gene expression dynamics along the pseudotime provides a valuable tool for reconstructing the underlying biological process and generating biological insights. TSCAN is an R package to support in silico reconstruction of cells{\textquoteright} pseudotime. This chapter introduces how to apply TSCAN to scRNA-seq data to perform pseudotime analysis.",
keywords = "Bioinformatics, Gene expression, Genomics, Minimum spanning tree, Pseudotime, Single-cell RNA-seq",
author = "Zhicheng Ji and Hongkai Ji",
note = "Publisher Copyright: {\textcopyright} Springer Science+Business Media, LLC, part of Springer Nature 2019. Copyright: Copyright 2019 Elsevier B.V., All rights reserved.",
year = "2019",
doi = "10.1007/978-1-4939-9057-3_8",
language = "English (US)",
series = "Methods in Molecular Biology",
publisher = "Humana Press Inc.",
pages = "115--124",
booktitle = "Methods in Molecular Biology",
}